Citrus Sinensis ID: 038389

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350---
MELTQHGFLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSFPSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEETKSSCAEIEQATSNITNQGFNMGLCVDRKRKNKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEETELGANQLLIGKFTELKSNEASVRNSPKFDVERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAGYGGKCL
cccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccEEEEEEEEccccccHHHHHHHHHHHcccEEEEEEEEEEcccEEEEEEEEEccccccccHHHHHHHHHHHHccccccc
cccccccHHHHHHcccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccEEEEEEEccEEEEEEEccccccHHHHHHHHHHHcccEEEEEEEEEccccEEEEEEHHHHcccccccHHHHHHHHHHHcccccccc
meltqhgfleellappiarrdawssfsgglneylpsgwildsldesstlaaaasnpssfvgfsaapseasfecppftdhlhqgyhpfvdgftvpevdtssytkneipsfpsaqeeyppmvveedrdqlclrssdhlhqnhsfeetksSCAEIEQATSNitnqgfnmglcvdrkrknkklegqpsknlMAERRRRKRLNDRLSMLRSIVpkiskmdrtsILGDTIDYLKELLERINKLQEEETELGANQLLIGKFTElksneasvrnspkfdverreidtridiccsskpglllstvNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFsnagyggkcl
MELTQHGFLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYtkneipsfpsaqeeyppMVVEEDRDQLCLRSSDHLHQNHSFEETKSSCAEIEQATsnitnqgfnmgLCVDrkrknkklegqpsknlmaerrrrkrlndrlsmlrsivpkiskmdrtsiLGDTIDYLKELLERINKLQEEETELGANQLLIGKftelksneasvrnspkfdverreidtridiccsskpglLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQalfsnagyggkcl
MELTQHGFLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSFPSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEETKSSCAEIEQATSNITNQGFNMGLCVDRKRKNKKLEGQPSKNLMAErrrrkrLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEETELGANQLLIGKFTELKSNEASVRNSPKFDVERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAGYGGKCL
*******FLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSL***************************FECPPFTDHLHQGYHPFVDGFTVPEV******************************************************************GFNMGLCV************************************IVPKISKMDRTSILGDTIDYLKELLERINKLQEEETELGANQLLIGKFTE****************ERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASC******************************
****QHGFLEELLAPP************G*NEYLPSGWILDS**********************************************************************************************************************************************************LNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELL*****************************************ERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEA*******SSEEIKQALFSNAGYGGKC*
MELTQHGFLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSFPSAQEEYPPMVVEEDRDQLCLRSSDHLHQN***********EIEQATSNITNQGFNMGLCVDRKRKNKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEETELGANQLLIGKFTELKSNEASVRNSPKFDVERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAGYGGKCL
*****HGFLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSFPSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEET***************************************KNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEET***********************NSPKFDVERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAGYGGKCL
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MELTQHGFLEELLAPPIARRDAWSSFSGGLNEYLPSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSFPSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEETKSSCAEIEQATSNITNQGFNMGLCVDRKRKNKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSIxxxxxxxxxxxxxxxxxxxxxxxxxxxxQLLIGKFTELKSNEASVRNSPKFDVERREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAGYGGKCL
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query353 2.2.26 [Sep-21-2011]
Q9LSL1351 Transcription factor bHLH yes no 0.543 0.547 0.723 1e-73
Q9LXA9315 Transcription factor bHLH no no 0.509 0.571 0.711 8e-68
Q9LSE2494 Transcription factor ICE1 no no 0.475 0.340 0.473 2e-36
Q9LPW3450 Transcription factor SCRE no no 0.475 0.373 0.478 4e-36
Q9ZVX2571 Transcription factor ABOR no no 0.342 0.211 0.401 5e-18
Q9FT81518 Transcription factor TT8 no no 0.441 0.301 0.321 3e-15
O49687589 Transcription factor MYC4 no no 0.487 0.292 0.310 2e-14
Q9FIP9592 Transcription factor ATR2 no no 0.487 0.290 0.293 5e-14
Q9ZPY8566 Transcription factor ABA- no no 0.314 0.196 0.382 1e-13
Q39204623 Transcription factor MYC2 no no 0.487 0.276 0.298 7e-13
>sp|Q9LSL1|BH093_ARATH Transcription factor bHLH93 OS=Arabidopsis thaliana GN=BHLH93 PE=1 SV=1 Back     alignment and function desciption
 Score =  276 bits (707), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 144/199 (72%), Positives = 167/199 (83%), Gaps = 7/199 (3%)

Query: 162 QGFNMGLCVD--RKRKNKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSI 219
           + F++G C     K+K+KKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSI
Sbjct: 153 KSFSVGYCGGETNKKKSKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSI 212

Query: 220 LGDTIDYLKELLERINKLQEEETELG-----ANQLLIGKFTELKSNEASVRNSPKFDVER 274
           LGD IDY+KELL++INKLQ+EE ELG      +  L G   +L +NE  VRNSPKF+++R
Sbjct: 213 LGDAIDYMKELLDKINKLQDEEQELGNSNNSHHSKLFGDLKDLNANEPLVRNSPKFEIDR 272

Query: 275 REIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS 334
           R+ DTR+DICCS KPGLLLSTVNTLE LGLEI+QCVISCF+DFSLQASCSE AE+R  ++
Sbjct: 273 RDEDTRVDICCSPKPGLLLSTVNTLETLGLEIEQCVISCFSDFSLQASCSEGAEQRDFIT 332

Query: 335 SEEIKQALFSNAGYGGKCL 353
           SE+IKQALF NAGYGG CL
Sbjct: 333 SEDIKQALFRNAGYGGSCL 351
Transcription factor. May be involved in the differentiation of stomatal guard cells.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9LXA9|BH061_ARATH Transcription factor bHLH61 OS=Arabidopsis thaliana GN=BHLH61 PE=2 SV=1 Back     alignment and function description
>sp|Q9LSE2|ICE1_ARATH Transcription factor ICE1 OS=Arabidopsis thaliana GN=SCRM PE=1 SV=1 Back     alignment and function description
>sp|Q9LPW3|SCRM2_ARATH Transcription factor SCREAM2 OS=Arabidopsis thaliana GN=SCRM2 PE=1 SV=1 Back     alignment and function description
>sp|Q9ZVX2|AMS_ARATH Transcription factor ABORTED MICROSPORES OS=Arabidopsis thaliana GN=AMS PE=1 SV=2 Back     alignment and function description
>sp|Q9FT81|TT8_ARATH Transcription factor TT8 OS=Arabidopsis thaliana GN=TT8 PE=1 SV=2 Back     alignment and function description
>sp|O49687|BH004_ARATH Transcription factor MYC4 OS=Arabidopsis thaliana GN=BHLH4 PE=2 SV=1 Back     alignment and function description
>sp|Q9FIP9|ATR2_ARATH Transcription factor ATR2 OS=Arabidopsis thaliana GN=ATR2 PE=1 SV=1 Back     alignment and function description
>sp|Q9ZPY8|AIB_ARATH Transcription factor ABA-INDUCIBLE bHLH-TYPE OS=Arabidopsis thaliana GN=AIB PE=2 SV=2 Back     alignment and function description
>sp|Q39204|RAP1_ARATH Transcription factor MYC2 OS=Arabidopsis thaliana GN=RAP1 PE=1 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query353
255575991354 DNA binding protein, putative [Ricinus c 0.957 0.954 0.612 1e-108
225469216331 PREDICTED: transcription factor bHLH93-l 0.932 0.993 0.630 1e-108
356496600334 PREDICTED: transcription factor bHLH93-l 0.932 0.985 0.631 1e-102
363807994333 uncharacterized protein LOC100784145 [Gl 0.929 0.984 0.620 1e-99
357485301325 BHLH transcription factor [Medicago trun 0.915 0.993 0.602 1e-98
225459000334 PREDICTED: transcription factor bHLH93 [ 0.934 0.988 0.582 1e-94
404551200334 transcription factor bHLH [Vitis vinifer 0.934 0.988 0.579 3e-94
384157481334 transcription factor bHLH [Vitis amurens 0.934 0.988 0.579 3e-94
449521403341 PREDICTED: transcription factor bHLH93-l 0.912 0.944 0.556 4e-90
359491457329 PREDICTED: transcription factor bHLH93-l 0.906 0.972 0.557 8e-86
>gi|255575991|ref|XP_002528891.1| DNA binding protein, putative [Ricinus communis] gi|223531645|gb|EEF33471.1| DNA binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  399 bits (1024), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 226/369 (61%), Positives = 272/369 (73%), Gaps = 31/369 (8%)

Query: 1   MELTQHGFLEELLAPPIARR------DAWSSF-----SGGLNEYLPSGWILDSLDESSTL 49
           MEL+QHGFLEELL  P  R        +W++F     + G +E+  +GW  DS DE+++L
Sbjct: 1   MELSQHGFLEELLQGPRIRDTNSGSGSSWATFPITTAATGSSEFFTNGWNFDSFDENTSL 60

Query: 50  AAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSF 109
           + A  NP SF+GF   P+E +F+C  F D      +PF DGFT       +   +  P F
Sbjct: 61  SPAP-NPCSFLGF-PTPTEPTFDCS-FNDQ----TYPFFDGFTAATTTVPTEIDDHTPPF 113

Query: 110 PSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEE--TKSSC-AEIEQATSNITN-QGFN 165
           P+ QE+YP MV +E+   L LRS       HSFEE  + +SC  E+EQA++N  N Q F+
Sbjct: 114 PT-QEDYPSMVEDEELGGLLLRS-------HSFEERLSSTSCKVELEQASNNNNNGQVFS 165

Query: 166 MGLCVDRKRKNKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTID 225
           MGL  ++K K+KKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTID
Sbjct: 166 MGLSAEKKNKSKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTID 225

Query: 226 YLKELLERINKLQEEETELGANQL-LIGKFTELKSNEASVRNSPKFDVERREIDTRIDIC 284
           Y+KELLERINKLQEEE+E G  ++ L+    E+K NE  VRNSPKF+V+RREIDTRIDIC
Sbjct: 226 YMKELLERINKLQEEESEDGTTEMTLMTNLNEIKPNEVLVRNSPKFNVDRREIDTRIDIC 285

Query: 285 CSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFS 344
           CS+KPGLLLSTVNTLE LGLEIQQCVISCFNDFS+QASCSEA E+RTL+S E+IKQALF 
Sbjct: 286 CSAKPGLLLSTVNTLEALGLEIQQCVISCFNDFSMQASCSEADEQRTLISPEDIKQALFR 345

Query: 345 NAGYGGKCL 353
            AGYGG+CL
Sbjct: 346 TAGYGGRCL 354

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225469216|ref|XP_002264407.1| PREDICTED: transcription factor bHLH93-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356496600|ref|XP_003517154.1| PREDICTED: transcription factor bHLH93-like [Glycine max] Back     alignment and taxonomy information
>gi|363807994|ref|NP_001241949.1| uncharacterized protein LOC100784145 [Glycine max] gi|255636814|gb|ACU18740.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|357485301|ref|XP_003612938.1| BHLH transcription factor [Medicago truncatula] gi|163889364|gb|ABY48134.1| bHLH transcription factor [Medicago truncatula] gi|355514273|gb|AES95896.1| BHLH transcription factor [Medicago truncatula] Back     alignment and taxonomy information
>gi|225459000|ref|XP_002285595.1| PREDICTED: transcription factor bHLH93 [Vitis vinifera] Back     alignment and taxonomy information
>gi|404551200|gb|AFR78197.1| transcription factor bHLH [Vitis vinifera] gi|404551202|gb|AFR78198.1| transcription factor bHLH [Vitis vinifera] Back     alignment and taxonomy information
>gi|384157481|gb|AFH68208.1| transcription factor bHLH [Vitis amurensis] gi|384157483|gb|AFH68209.1| transcription factor bHLH [Vitis amurensis] Back     alignment and taxonomy information
>gi|449521403|ref|XP_004167719.1| PREDICTED: transcription factor bHLH93-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|359491457|ref|XP_002276557.2| PREDICTED: transcription factor bHLH93-like [Vitis vinifera] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query353
TAIR|locus:2155725351 bHLH093 "AT5G65640" [Arabidops 0.943 0.948 0.485 2.1e-70
TAIR|locus:2142419315 AT5G10570 "AT5G10570" [Arabido 0.507 0.568 0.683 4.8e-66
UNIPROTKB|Q8H8E4430 OJ1006F06.1 "Putative bHLH tra 0.937 0.769 0.413 3.1e-51
UNIPROTKB|Q336V8380 Os10g0544200 "Os10g0544200 pro 0.490 0.455 0.537 8.4e-42
TAIR|locus:2090847494 ICE1 "AT3G26744" [Arabidopsis 0.184 0.131 0.712 9.8e-30
UNIPROTKB|Q2R3F6524 Os11g0523700 "Helix-loop-helix 0.305 0.206 0.488 2.1e-28
TAIR|locus:2039445571 AMS "AT2G16910" [Arabidopsis t 0.220 0.136 0.518 4.1e-14
UNIPROTKB|Q5Z988213 P0548E04.5 "Os06g0724800 prote 0.150 0.248 0.574 3.7e-12
TAIR|locus:2141055589 MYC4 "AT4G17880" [Arabidopsis 0.487 0.292 0.3 6.6e-11
TAIR|locus:2178555592 MYC3 "AT5G46760" [Arabidopsis 0.487 0.290 0.288 8.6e-11
TAIR|locus:2155725 bHLH093 "AT5G65640" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 713 (256.0 bits), Expect = 2.1e-70, P = 2.1e-70
 Identities = 180/371 (48%), Positives = 225/371 (60%)

Query:     1 MEL-TQHGFLEELLAPPIARRDAWS----SFSGGLN----EYLPSGWILDSL--DESSTL 49
             MEL TQ    EELL P        +    SF+GG +    ++ P+G+ +D L  +     
Sbjct:     1 MELSTQMNVFEELLVPTKQETTDNNINNLSFNGGFDHHHHQFFPNGYNIDYLCFNNEEED 60

Query:    50 AAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDTSSYTKNEIPSF 109
                   PSSF+   + P       PP    LHQ   P +   + P   +SS T      +
Sbjct:    61 ENTLLYPSSFMDLISQP-------PPLL--LHQP--PPLQPLSPPL--SSSATAGATFDY 107

Query:   110 PSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEETKSSCAEIEQATSNITNQGFNMGLC 169
             P  +     +        L L++    + N+      S   E +Q+ S      F++G C
Sbjct:   108 PFLEALQEIIDSSSSSPPLILQNGQEENFNNPMSYP-SPLMESDQSKS------FSVGYC 160

Query:   170 --VDRKRKNKKLEGQPSKNLMAEXXXXXXLNDRLSMLRSIVPKISKMDRTSILGDTIDYL 227
                  K+K+KKLEGQPSKNLMAE      LNDRLSMLRSIVPKISKMDRTSILGD IDY+
Sbjct:   161 GGETNKKKSKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDAIDYM 220

Query:   228 KELLERINKLQEEETELG-ANQL----LIGKFTELKSNEASVRNSPKFDVERREIDTRID 282
             KELL++INKLQ+EE ELG +N      L G   +L +NE  VRNSPKF+++RR+ DTR+D
Sbjct:   221 KELLDKINKLQDEEQELGNSNNSHHSKLFGDLKDLNANEPLVRNSPKFEIDRRDEDTRVD 280

Query:   283 ICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQAL 342
             ICCS KPGLLLSTVNTLE LGLEI+QCVISCF+DFSLQASCSE AE+R  ++SE+IKQAL
Sbjct:   281 ICCSPKPGLLLSTVNTLETLGLEIEQCVISCFSDFSLQASCSEGAEQRDFITSEDIKQAL 340

Query:   343 FSNAGYGGKCL 353
             F NAGYGG CL
Sbjct:   341 FRNAGYGGSCL 351
GO:0003677 "DNA binding" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS
TAIR|locus:2142419 AT5G10570 "AT5G10570" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q8H8E4 OJ1006F06.1 "Putative bHLH transcription protein" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|Q336V8 Os10g0544200 "Os10g0544200 protein" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2090847 ICE1 "AT3G26744" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q2R3F6 Os11g0523700 "Helix-loop-helix DNA-binding domain containing protein, expressed" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2039445 AMS "AT2G16910" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q5Z988 P0548E04.5 "Os06g0724800 protein" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2141055 MYC4 "AT4G17880" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2178555 MYC3 "AT5G46760" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9LSL1BH093_ARATHNo assigned EC number0.72360.54390.5470yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query353
cd0008360 cd00083, HLH, Helix-loop-helix domain, found in sp 2e-10
smart0035353 smart00353, HLH, helix loop helix domain 2e-10
pfam0001052 pfam00010, HLH, Helix-loop-helix DNA-binding domai 5e-09
>gnl|CDD|238036 cd00083, HLH, Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long Back     alignment and domain information 
 Score = 55.7 bits (135), Expect = 2e-10
 Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 3/50 (6%)

Query: 188 MAERRRRKRLNDRLSMLRSIVP---KISKMDRTSILGDTIDYLKELLERI 234
           + ERRRR+R+ND    LRS++P      K+ +  IL   +DY+K L E +
Sbjct: 10  LRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59

A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and have a PAS domain which allows the dimerization between PAS proteins, the binding of small molecules (e.g., dioxin), and interactions with non-PAS proteins. Length = 60
>gnl|CDD|197674 smart00353, HLH, helix loop helix domain Back     alignment and domain information
>gnl|CDD|215654 pfam00010, HLH, Helix-loop-helix DNA-binding domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 353
cd0008360 HLH Helix-loop-helix domain, found in specific DNA 99.3
smart0035353 HLH helix loop helix domain. 99.26
PF0001055 HLH: Helix-loop-helix DNA-binding domain only nucl 99.26
KOG1318411 consensus Helix loop helix transcription factor EB 98.82
cd0489775 ACT_ACR_3 ACT domain-containing protein which is c 98.67
cd0489572 ACT_ACR_1 ACT domain-containing protein which is c 98.47
cd0489675 ACT_ACR-like_3 ACT domain-containing protein which 98.43
KOG1319229 consensus bHLHZip transcription factor BIGMAX [Tra 98.42
cd0492776 ACT_ACR-like_2 Second ACT domain, of a novel type 98.37
KOG4304250 consensus Transcriptional repressors of the hairy/ 98.26
cd0490073 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, 98.19
cd0492574 ACT_ACR_2 ACT domain-containing protein which is c 97.99
KOG3561 803 consensus Aryl-hydrocarbon receptor nuclear transl 97.96
KOG3960284 consensus Myogenic helix-loop-helix transcription 97.9
cd0492868 ACT_TyrKc Uncharacterized, N-terminal ACT domain o 97.79
KOG2483232 consensus Upstream transcription factor 2/L-myc-2 97.78
KOG2588 953 consensus Predicted DNA-binding protein [Transcrip 97.76
cd0489970 ACT_ACR-UUR-like_2 C-terminal ACT domains of the b 97.72
cd0492672 ACT_ACR_4 C-terminal ACT domain, of a novel type o 97.7
KOG0561 373 consensus bHLH transcription factor [Transcription 97.56
PRK05007884 PII uridylyl-transferase; Provisional 97.34
PLN0321793 transcription factor ATBS1; Provisional 97.27
PF0184266 ACT: ACT domain; InterPro: IPR002912 The ACT domai 97.13
cd0487370 ACT_UUR-ACR-like ACT domains of the bacterial sign 97.06
PRK01759854 glnD PII uridylyl-transferase; Provisional 97.06
PRK00275895 glnD PII uridylyl-transferase; Provisional 97.05
KOG4029228 consensus Transcription factor HAND2/Transcription 96.91
PRK04374869 PII uridylyl-transferase; Provisional 96.85
PRK05092931 PII uridylyl-transferase; Provisional 96.79
PRK03059856 PII uridylyl-transferase; Provisional 96.77
cd0489377 ACT_GcvR_1 ACT domains that comprise the Glycine C 96.6
PRK03381774 PII uridylyl-transferase; Provisional 96.5
PRK03381 774 PII uridylyl-transferase; Provisional 96.39
COG2844867 GlnD UTP:GlnB (protein PII) uridylyltransferase [P 96.29
PRK05007 884 PII uridylyl-transferase; Provisional 96.29
TIGR01693 850 UTase_glnD [Protein-PII] uridylyltransferase. This 96.28
TIGR01693850 UTase_glnD [Protein-PII] uridylyltransferase. This 96.25
PF1374076 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A. 96.24
PRK01759854 glnD PII uridylyl-transferase; Provisional 96.21
PRK0019490 hypothetical protein; Validated 95.94
cd0486981 ACT_GcvR_2 ACT domains that comprise the Glycine C 95.69
cd0487574 ACT_F4HF-DF N-terminal ACT domain of formyltetrahy 95.67
cd0487288 ACT_1ZPV ACT domain proteins similar to the yet un 95.54
PRK00275 895 glnD PII uridylyl-transferase; Provisional 95.54
PRK05092 931 PII uridylyl-transferase; Provisional 95.36
PRK03059856 PII uridylyl-transferase; Provisional 95.14
PRK04374 869 PII uridylyl-transferase; Provisional 94.95
cd0489469 ACT_ACR-like_1 ACT domain-containing protein which 94.81
cd0487075 ACT_PSP_1 CT domains found N-terminal of phosphose 94.39
KOG4447173 consensus Transcription factor TWIST [Transcriptio 94.19
PF1329180 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A. 93.89
cd0488774 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-te 92.48
cd0488673 ACT_ThrD-II-like C-terminal ACT domain of biodegra 92.38
KOG3910632 consensus Helix loop helix transcription factor [T 91.98
PRK13010 289 purU formyltetrahydrofolate deformylase; Reviewed 91.71
KOG3560 712 consensus Aryl-hydrocarbon receptor [Transcription 91.15
cd0211660 ACT ACT domains are commonly involved in specifica 90.95
cd0488876 ACT_PheB-BS C-terminal ACT domain of a small (~147 90.68
TIGR00655 280 PurU formyltetrahydrofolate deformylase. This mode 90.13
cd0488372 ACT_AcuB C-terminal ACT domain of the Bacillus sub 89.4
cd0487671 ACT_RelA-SpoT ACT domain found C-terminal of the R 89.34
cd0488179 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-termin 89.2
PRK04435147 hypothetical protein; Provisional 88.59
cd0487472 ACT_Af1403 N-terminal ACT domain of the yet unchar 88.56
cd0487774 ACT_TyrR N-terminal ACT domain of the TyrR protein 87.65
PRK06027 286 purU formyltetrahydrofolate deformylase; Reviewed 87.28
cd0487971 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-te 87.21
KOG3559 598 consensus Transcriptional regulator SIM1 [Transcri 86.75
cd0488265 ACT_Bt0572_2 C-terminal ACT domain of a novel prot 86.08
cd0490969 ACT_PDH-BS C-terminal ACT domain of the monofuncti 85.81
KOG3558 768 consensus Hypoxia-inducible factor 1/Neuronal PAS 85.57
PRK13011 286 formyltetrahydrofolate deformylase; Reviewed 85.4
COG2844 867 GlnD UTP:GlnB (protein PII) uridylyltransferase [P 85.34
cd0490371 ACT_LSD C-terminal ACT domain of the L-serine dehy 84.93
PRK08577136 hypothetical protein; Provisional 84.22
cd0488472 ACT_CBS C-terminal ACT domain of the cystathionine 84.09
cd0488075 ACT_AAAH-PDT-like ACT domain of the nonheme iron-d 83.25
cd0490580 ACT_CM-PDT C-terminal ACT domain of the bifunction 82.32
cd0488956 ACT_PDH-BS-like C-terminal ACT domain of the monof 82.26
cd0490866 ACT_Bt0572_1 N-terminal ACT domain of a novel prot 82.15
KOG3898254 consensus Transcription factor NeuroD and related 82.1
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long Back     alignment and domain information 
Probab=99.30  E-value=2.1e-12  Score=95.64  Aligned_cols=53  Identities=38%  Similarity=0.710  Sum_probs=49.7

Q ss_pred             CCccchHHHHHHHHHHHHHHHhhhhcCCCC---CCCCccchhHHHHHHHHHHHHHH
Q 038389          182 QPSKNLMAERRRRKRLNDRLSMLRSIVPKI---SKMDRTSILGDTIDYLKELLERI  234 (353)
Q Consensus       182 ~~~~h~~~ER~RR~~in~~~~~LrslvP~~---~k~dKasIL~~ai~YIk~Lq~~v  234 (353)
                      .+..|++.||+||++||+.|..|+++||..   .|++|++||..||+||+.|+.++
T Consensus         4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~   59 (60)
T cd00083           4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL   59 (60)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence            456799999999999999999999999987   78999999999999999999876

A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
>smart00353 HLH helix loop helix domain Back     alignment and domain information
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt) Back     alignment and domain information
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription] Back     alignment and domain information
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription] Back     alignment and domain information
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription] Back     alignment and domain information
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains Back     alignment and domain information
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription] Back     alignment and domain information
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription] Back     alignment and domain information
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains Back     alignment and domain information
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription] Back     alignment and domain information
>KOG2588 consensus Predicted DNA-binding protein [Transcription] Back     alignment and domain information
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains Back     alignment and domain information
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>KOG0561 consensus bHLH transcription factor [Transcription] Back     alignment and domain information
>PRK05007 PII uridylyl-transferase; Provisional Back     alignment and domain information
>PLN03217 transcription factor ATBS1; Provisional Back     alignment and domain information
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold Back     alignment and domain information
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD Back     alignment and domain information
>PRK01759 glnD PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK00275 glnD PII uridylyl-transferase; Provisional Back     alignment and domain information
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription] Back     alignment and domain information
>PRK04374 PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK05092 PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK03059 PII uridylyl-transferase; Provisional Back     alignment and domain information
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains Back     alignment and domain information
>PRK03381 PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK03381 PII uridylyl-transferase; Provisional Back     alignment and domain information
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PRK05007 PII uridylyl-transferase; Provisional Back     alignment and domain information
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase Back     alignment and domain information
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase Back     alignment and domain information
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A Back     alignment and domain information
>PRK01759 glnD PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK00194 hypothetical protein; Validated Back     alignment and domain information
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains Back     alignment and domain information
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) Back     alignment and domain information
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein Back     alignment and domain information
>PRK00275 glnD PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK05092 PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK03059 PII uridylyl-transferase; Provisional Back     alignment and domain information
>PRK04374 PII uridylyl-transferase; Provisional Back     alignment and domain information
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein) Back     alignment and domain information
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB) Back     alignment and domain information
>KOG4447 consensus Transcription factor TWIST [Transcription] Back     alignment and domain information
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A Back     alignment and domain information
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains Back     alignment and domain information
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains Back     alignment and domain information
>KOG3910 consensus Helix loop helix transcription factor [Transcription] Back     alignment and domain information
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed Back     alignment and domain information
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription] Back     alignment and domain information
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme Back     alignment and domain information
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a Back     alignment and domain information
>TIGR00655 PurU formyltetrahydrofolate deformylase Back     alignment and domain information
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB Back     alignment and domain information
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains Back     alignment and domain information
>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains Back     alignment and domain information
>PRK04435 hypothetical protein; Provisional Back     alignment and domain information
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a Back     alignment and domain information
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein Back     alignment and domain information
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed Back     alignment and domain information
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH) Back     alignment and domain information
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription] Back     alignment and domain information
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains Back     alignment and domain information
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) Back     alignment and domain information
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription] Back     alignment and domain information
>PRK13011 formyltetrahydrofolate deformylase; Reviewed Back     alignment and domain information
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit Back     alignment and domain information
>PRK08577 hypothetical protein; Provisional Back     alignment and domain information
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria Back     alignment and domain information
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH) Back     alignment and domain information
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme Back     alignment and domain information
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate Back     alignment and domain information
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains Back     alignment and domain information
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query353
1am9_A82 Srebp-1A, protein (sterol regulatory element bindi 2e-14
1nkp_A88 C-MYC, MYC proto-oncogene protein; transcription, 3e-11
1nkp_B83 MAX protein, MYC proto-oncogene protein; transcrip 4e-11
1hlo_A80 Protein (transcription factor MAX); transcriptiona 5e-11
1an4_A65 Protein (upstream stimulatory factor); protein-DNA 3e-08
1nlw_A80 MAD protein, MAX dimerizer; transcription factor, 1e-07
4f3l_A 361 Mclock, circadian locomoter output cycles protein 4e-05
4f3l_B 387 BMAL1B; BHLH, PAS, circadian rhythm proteins, tran 8e-05
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C Length = 82 Back     alignment and structure
 Score = 66.6 bits (163), Expect = 2e-14
 Identities = 17/58 (29%), Positives = 34/58 (58%), Gaps = 1/58 (1%)

Query: 188 MAERRRRKRLNDRLSMLRSIVPKI-SKMDRTSILGDTIDYLKELLERINKLQEEETEL 244
             E+R R  +ND++  L+ +V    +K++++++L   IDY++ L     KL++E   L
Sbjct: 12  AIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSL 69
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 Length = 88 Back     alignment and structure
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B Length = 83 Back     alignment and structure
>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA binding, complex (transcription factor MAX/DNA), transcription/DNA complex; HET: DNA; 2.80A {Homo sapiens} SCOP: a.38.1.1 Length = 80 Back     alignment and structure
>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double helix, overhanging base, transcription/DNA complex; HET: DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1 Length = 65 Back     alignment and structure
>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ, transcription/DNA complex; 2.00A {Homo sapiens} SCOP: a.38.1.1 Length = 80 Back     alignment and structure
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Length = 361 Back     alignment and structure
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Length = 387 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query353
1am9_A82 Srebp-1A, protein (sterol regulatory element bindi 99.56
1an4_A65 Protein (upstream stimulatory factor); protein-DNA 99.47
1nkp_B83 MAX protein, MYC proto-oncogene protein; transcrip 99.45
1hlo_A80 Protein (transcription factor MAX); transcriptiona 99.45
1a0a_A63 BHLH, protein (phosphate system positive regulator 99.44
4ati_A118 MITF, microphthalmia-associated transcription fact 99.43
4h10_B71 Circadian locomoter output cycles protein kaput; B 99.43
1nkp_A88 C-MYC, MYC proto-oncogene protein; transcription, 99.39
4h10_A73 ARYL hydrocarbon receptor nuclear translocator-LI 99.34
1nlw_A80 MAD protein, MAX dimerizer; transcription factor, 99.33
3u5v_A76 Protein MAX, transcription factor E2-alpha chimer; 99.24
1mdy_A68 Protein (MYOD BHLH domain); protein-DNA complex, t 98.99
2ql2_B60 Neurod1, neurogenic differentiation factor 1; basi 98.96
4f3l_A 361 Mclock, circadian locomoter output cycles protein 98.81
4f3l_B 387 BMAL1B; BHLH, PAS, circadian rhythm proteins, tran 98.64
2lfh_A68 DNA-binding protein inhibitor ID-3; structural gen 98.37
4ath_A83 MITF, microphthalmia-associated transcription fact 98.29
4aya_A97 DNA-binding protein inhibitor ID-2; cell cycle; 2. 97.72
1zpv_A91 ACT domain protein; structural genomics, PSI, prot 96.51
1u8s_A 192 Glycine cleavage system transcriptional repressor, 95.86
2nyi_A 195 Unknown protein; protein structure initiative, PSI 95.42
2nyi_A195 Unknown protein; protein structure initiative, PSI 94.25
2ko1_A88 CTR148A, GTP pyrophosphokinase; homodimer, alpha+b 93.9
1u8s_A192 Glycine cleavage system transcriptional repressor, 93.61
3p96_A 415 Phosphoserine phosphatase SERB; ssgcid, structural 90.47
3o1l_A 302 Formyltetrahydrofolate deformylase; structural gen 89.24
2jhe_A 190 Transcription regulator TYRR; aromatic hydrocarbon 88.24
3n0v_A 286 Formyltetrahydrofolate deformylase; formyl transfe 87.79
3obi_A 288 Formyltetrahydrofolate deformylase; structural gen 86.97
3lou_A 292 Formyltetrahydrofolate deformylase; structural gen 86.29
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A); basic-helix-loop- helix-leucine zipper, transcription factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1 PDB: 1ukl_C Back     alignment and structure
Probab=99.56  E-value=2.4e-15  Score=119.12  Aligned_cols=63  Identities=27%  Similarity=0.495  Sum_probs=58.3

Q ss_pred             CCccchHHHHHHHHHHHHHHHhhhhcCCCC-CCCCccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 038389          182 QPSKNLMAERRRRKRLNDRLSMLRSIVPKI-SKMDRTSILGDTIDYLKELLERINKLQEEETEL  244 (353)
Q Consensus       182 ~~~~h~~~ER~RR~~in~~~~~LrslvP~~-~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~~e~  244 (353)
                      ++..|+.+||+||++||+.|..|+++||.. .|++|++||.+||+||++|+.+++.|+.+...+
T Consensus         6 rr~~H~~~ErrRR~~in~~f~~L~~lvP~~~~k~~Ka~IL~~Ai~YI~~Lq~~~~~L~~e~~~L   69 (82)
T 1am9_A            6 KRTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSL   69 (82)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356899999999999999999999999986 899999999999999999999999999876554
>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double helix, overhanging base, transcription/DNA complex; HET: DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1 Back     alignment and structure
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B Back     alignment and structure
>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA binding, complex (transcription factor MAX/DNA), transcription/DNA complex; HET: DNA; 2.80A {Homo sapiens} SCOP: a.38.1.1 Back     alignment and structure
>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4); transcription factor, basic helix loop helix; HET: DNA; 2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1 Back     alignment and structure
>4ati_A MITF, microphthalmia-associated transcription factor; DNA-binding protein-DNA complex, melanoma; 2.60A {Mus musculus} PDB: 4atk_A Back     alignment and structure
>4h10_B Circadian locomoter output cycles protein kaput; BHLH, circadian transcription, transcription-DNA complex; 2.40A {Homo sapiens} Back     alignment and structure
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ, heterodimer, transcription/DNA complex; 1.80A {Homo sapiens} SCOP: a.38.1.1 Back     alignment and structure
>4h10_A ARYL hydrocarbon receptor nuclear translocator-LI 1; BHLH, circadian transcription, transcription-DNA complex; 2.40A {Homo sapiens} Back     alignment and structure
>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ, transcription/DNA complex; 2.00A {Homo sapiens} SCOP: a.38.1.1 Back     alignment and structure
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB: 2ql2_A* Back     alignment and structure
>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex, transcription/DNA complex; HET: DNA; 2.80A {Mus musculus} SCOP: a.38.1.1 PDB: 1mdy_B* Back     alignment and structure
>2ql2_B Neurod1, neurogenic differentiation factor 1; basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus} Back     alignment and structure
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Back     alignment and structure
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Back     alignment and structure
>2lfh_A DNA-binding protein inhibitor ID-3; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens} Back     alignment and structure
>4ath_A MITF, microphthalmia-associated transcription factor; DNA binding protein, melanoma; HET: MSE; 1.95A {Mus musculus} Back     alignment and structure
>4aya_A DNA-binding protein inhibitor ID-2; cell cycle; 2.10A {Homo sapiens} Back     alignment and structure
>1zpv_A ACT domain protein; structural genomics, PSI, protein structure INIT midwest center for structural genomics, MCSG, unknown funct; 1.90A {Streptococcus pneumoniae} SCOP: d.58.18.7 Back     alignment and structure
>1u8s_A Glycine cleavage system transcriptional repressor, putative; structural genomics, protein structure initiative (PSI), domain swapping; 2.45A {Vibrio cholerae} SCOP: d.58.18.5 d.58.18.5 Back     alignment and structure
>2nyi_A Unknown protein; protein structure initiative, PSI, center for eukaryotic structural genomics, CESG, structural genomics; 1.80A {Galdieria sulphuraria} Back     alignment and structure
>2nyi_A Unknown protein; protein structure initiative, PSI, center for eukaryotic structural genomics, CESG, structural genomics; 1.80A {Galdieria sulphuraria} Back     alignment and structure
>2ko1_A CTR148A, GTP pyrophosphokinase; homodimer, alpha+beta, transferase, structural genomics, PSI-2, protein structure initiative; NMR {Chlorobaculum tepidum} PDB: 3ibw_A Back     alignment and structure
>1u8s_A Glycine cleavage system transcriptional repressor, putative; structural genomics, protein structure initiative (PSI), domain swapping; 2.45A {Vibrio cholerae} SCOP: d.58.18.5 d.58.18.5 Back     alignment and structure
>3p96_A Phosphoserine phosphatase SERB; ssgcid, structural genomics, structural genomics center for infectious disease, hydrolas; 2.05A {Mycobacterium avium} Back     alignment and structure
>3o1l_A Formyltetrahydrofolate deformylase; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE; 2.20A {Pseudomonas syringae PV} Back     alignment and structure
>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protei nucleotide-binding, transcription regulation, activator; HET: PG4; 2.30A {Escherichia coli} Back     alignment and structure
>3n0v_A Formyltetrahydrofolate deformylase; formyl transferase, ACT domain, structural genomics, joint C structural genomics, JCSG; HET: MSE; 2.25A {Pseudomonas putida} Back     alignment and structure
>3obi_A Formyltetrahydrofolate deformylase; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE; 1.95A {Rhodopseudomonas palustris} Back     alignment and structure
>3lou_A Formyltetrahydrofolate deformylase; structural genomics, JOI for structural genomics, JCSG, protein structure initiative hydrolase; HET: MSE; 1.90A {Burkholderia mallei} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 353
d1uklc_61 a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId 2e-13
d1nkpa_88 a.38.1.1 (A:) Myc proto-oncogene protein {Human (H 1e-12
d1nkpb_83 a.38.1.1 (B:) Max protein {Human (Homo sapiens) [T 2e-12
d1am9a_80 a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxI 2e-11
d1nlwa_79 a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [T 4e-11
d1a0aa_63 a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Sa 9e-11
d1an4a_65 a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapien 2e-10
d1mdya_68 a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus muscul 1e-09
>d1uklc_ a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 61 Back     information, alignment and structure

class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.4 bits (152), Expect = 2e-13
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 194 RKRLNDRLSMLRSIVPKI-SKMDRTSILGDTIDYLKELLERINKLQEEETELGANQ 248
           R  +ND++  L+ +V    +KM ++ +L   IDY+K L +  +KL++E   L    
Sbjct: 1   RSSINDKIIELKDLVMGTDAKMHKSGVLRKAIDYIKYLQQVNHKLRQENMVLKLAN 56
>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88 Back     information, alignment and structure
>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]} Length = 83 Back     information, alignment and structure
>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]} Length = 80 Back     information, alignment and structure
>d1nlwa_ a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [TaxId: 9606]} Length = 79 Back     information, alignment and structure
>d1a0aa_ a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 63 Back     information, alignment and structure
>d1an4a_ a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapiens) [TaxId: 9606]} Length = 65 Back     information, alignment and structure
>d1mdya_ a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 68 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query353
d1am9a_80 SREBP-1a {Human (Homo sapiens) [TaxId: 9606]} 99.45
d1a0aa_63 Pho4 B/HLH domain {Baker's yeast (Saccharomyces ce 99.45
d1nlwa_79 Mad protein {Human (Homo sapiens) [TaxId: 9606]} 99.43
d1mdya_68 Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10 99.41
d1nkpb_83 Max protein {Human (Homo sapiens) [TaxId: 9606]} 99.4
d1nkpa_88 Myc proto-oncogene protein {Human (Homo sapiens) [ 99.38
d1an4a_65 Usf B/HLH domain {Human (Homo sapiens) [TaxId: 960 99.34
d1uklc_61 SREBP-2 {Human (Homo sapiens) [TaxId: 9606]} 99.28
d1zpva183 UPF0237 protein SP0238 {Streptococcus pneumoniae [ 97.0
d1u8sa186 putative transcriptional repressor VC2159 {Vibrio 96.47
d1u8sa293 putative transcriptional repressor VC2159 {Vibrio 96.26
d2f06a171 Hypothetical protein BT0572 {Bacteroides thetaiota 92.58
d1y7pa277 Hypothetical protein AF1403, N-terminal domain {Ar 92.35
d2f06a270 Hypothetical protein BT0572 {Bacteroides thetaiota 91.48
>d1am9a_ a.38.1.1 (A:) SREBP-1a {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: HLH-like
superfamily: HLH, helix-loop-helix DNA-binding domain
family: HLH, helix-loop-helix DNA-binding domain
domain: SREBP-1a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=3.1e-14  Score=110.15  Aligned_cols=62  Identities=27%  Similarity=0.494  Sum_probs=56.5

Q ss_pred             CccchHHHHHHHHHHHHHHHhhhhcCCCC-CCCCccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 038389          183 PSKNLMAERRRRKRLNDRLSMLRSIVPKI-SKMDRTSILGDTIDYLKELLERINKLQEEETEL  244 (353)
Q Consensus       183 ~~~h~~~ER~RR~~in~~~~~LrslvP~~-~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~~e~  244 (353)
                      +..|+.+||+||.+||+.|..|++|||+. .|++|++||..||+||+.|+.+++.|..+...+
T Consensus         7 R~~H~~~Er~RR~~in~~~~~L~~llP~~~~k~~K~~iL~~a~~yI~~L~~~~~~L~~e~~~l   69 (80)
T d1am9a_           7 RTAHNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQHSNQKLKQENLSL   69 (80)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45799999999999999999999999974 688999999999999999999999999875443
>d1a0aa_ a.38.1.1 (A:) Pho4 B/HLH domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1nlwa_ a.38.1.1 (A:) Mad protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1mdya_ a.38.1.1 (A:) Myod B/HLH domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1nkpb_ a.38.1.1 (B:) Max protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1nkpa_ a.38.1.1 (A:) Myc proto-oncogene protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1an4a_ a.38.1.1 (A:) Usf B/HLH domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1uklc_ a.38.1.1 (C:) SREBP-2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1zpva1 d.58.18.7 (A:1-83) UPF0237 protein SP0238 {Streptococcus pneumoniae [TaxId: 1313]} Back     information, alignment and structure
>d1u8sa1 d.58.18.5 (A:2-87) putative transcriptional repressor VC2159 {Vibrio cholerae [TaxId: 666]} Back     information, alignment and structure
>d1u8sa2 d.58.18.5 (A:88-180) putative transcriptional repressor VC2159 {Vibrio cholerae [TaxId: 666]} Back     information, alignment and structure
>d2f06a1 d.58.18.11 (A:71-141) Hypothetical protein BT0572 {Bacteroides thetaiotaomicron [TaxId: 818]} Back     information, alignment and structure
>d1y7pa2 d.58.18.12 (A:2-78) Hypothetical protein AF1403, N-terminal domain {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2f06a2 d.58.18.11 (A:1-70) Hypothetical protein BT0572 {Bacteroides thetaiotaomicron [TaxId: 818]} Back     information, alignment and structure